Just get some MC4 "Y" connectors and skip the combiner box. Then get some MC4 cable with #8 wire to pull down to the controller. Plug and play.
No fuse needed on the panel side. All wire exceeds the panel supply potential. A dead short will not even warm the wire and no harm to the panels. Although a switch to cut power for service could be helpful.
AGM is not exempt from venting requirements to meet RVIA and NEC standards. But I would do same as you.
25 amp fuse to the battery is small. Need 50 amp fuse on the positive close to the battery. 40a x 1.2 = 48 ~50a. I recommend a 50a Bussmann high-amp breaker that can be switched off for service. #6 wire is fine for that short distance.
40a controller is fine IMO.
That is my two cents. If it seems odd maybe I misread something.